Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA   Type   Machinery gene
Locus tag   ACAM56_RS25395 Genome accession   NZ_AP028667
Coordinates   5341902..5342363 (-) Length   153 a.a.
NCBI ID   WP_369649323.1    Uniprot ID   -
Organism   Variovorax sp. V59     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 5324697..5341828 5341902..5342363 flank 74


Gene organization within MGE regions


Location: 5324697..5342363
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACAM56_RS25320 (GmRootV59_50120) - 5324697..5325860 (-) 1164 WP_369649308.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  ACAM56_RS25325 (GmRootV59_50130) - 5325862..5326590 (-) 729 WP_369649309.1 class I SAM-dependent methyltransferase -
  ACAM56_RS25330 (GmRootV59_50140) - 5326587..5327813 (-) 1227 WP_369649310.1 glycosyltransferase family 4 protein -
  ACAM56_RS25335 (GmRootV59_50150) wecB 5327810..5328901 (-) 1092 WP_369651886.1 non-hydrolyzing UDP-N-acetylglucosamine 2-epimerase -
  ACAM56_RS25340 (GmRootV59_50160) - 5328911..5329969 (-) 1059 WP_369649312.1 glycosyltransferase -
  ACAM56_RS25345 (GmRootV59_50170) - 5329966..5330667 (-) 702 WP_369649313.1 class I SAM-dependent methyltransferase -
  ACAM56_RS25350 (GmRootV59_50180) - 5330642..5331958 (-) 1317 WP_369649314.1 glycosyltransferase -
  ACAM56_RS25355 (GmRootV59_50190) - 5331985..5332659 (-) 675 WP_369649315.1 methyltransferase domain-containing protein -
  ACAM56_RS25360 (GmRootV59_50200) - 5332682..5334133 (-) 1452 WP_369649316.1 lipopolysaccharide biosynthesis protein -
  ACAM56_RS25365 (GmRootV59_50210) - 5334195..5335301 (-) 1107 WP_369649317.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  ACAM56_RS25370 (GmRootV59_50220) - 5335298..5335879 (-) 582 WP_369649318.1 DapH/DapD/GlmU-related protein -
  ACAM56_RS25375 (GmRootV59_50230) - 5335876..5336823 (-) 948 WP_369649319.1 Gfo/Idh/MocA family oxidoreductase -
  ACAM56_RS25380 (GmRootV59_50240) - 5336825..5338120 (-) 1296 WP_369649320.1 nucleotide sugar dehydrogenase -
  ACAM56_RS25385 (GmRootV59_50250) - 5338124..5340037 (-) 1914 WP_369649321.1 polysaccharide biosynthesis protein -
  ACAM56_RS25390 (GmRootV59_50260) - 5340089..5341771 (-) 1683 WP_369649322.1 Wzy polymerase domain-containing protein -
  ACAM56_RS25395 (GmRootV59_50270) pilA 5341902..5342363 (-) 462 WP_369649323.1 pilin Machinery gene

Sequence

Protein


Download         Length: 153 a.a.        Molecular weight: 15359.81 Da        Isoelectric Point: 10.1091

>NTDB_id=106816 ACAM56_RS25395 WP_369649323.1 5341902..5342363(-) (pilA) [Variovorax sp. V59]
MNRRSIARNVQKGFTLIELMIVVAIIGILAAVALPAYQDYTVRARVTEAIVIASGAKATIGENAANGASLDSGVDAIASG
SGLKNLSTMSTAAATGVITLVTTSAAGALTLTLTPTANGSALQSGVLPGGPIKWTCAVSSAAKNKFVPTECRI

Nucleotide


Download         Length: 462 bp        

>NTDB_id=106816 ACAM56_RS25395 WP_369649323.1 5341902..5342363(-) (pilA) [Variovorax sp. V59]
ATGAACCGTCGTTCTATCGCACGCAACGTGCAAAAGGGTTTCACCCTTATCGAATTGATGATCGTTGTGGCGATCATCGG
TATCTTGGCTGCTGTGGCTCTGCCGGCGTATCAGGATTACACGGTGCGCGCGCGTGTGACCGAGGCGATTGTCATTGCTT
CTGGCGCGAAGGCGACCATTGGTGAGAATGCCGCGAATGGTGCCTCCCTTGATTCTGGTGTCGACGCCATTGCATCGGGA
TCGGGCCTGAAGAACCTTAGCACCATGAGTACGGCTGCTGCGACCGGCGTCATCACGTTGGTGACAACGTCGGCTGCAGG
TGCTTTGACCCTCACGTTGACCCCGACCGCTAATGGCTCTGCTTTGCAAAGTGGTGTTCTTCCGGGTGGCCCGATCAAGT
GGACGTGCGCAGTTTCCAGTGCTGCAAAGAACAAGTTTGTTCCGACTGAATGCCGCATCTAA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(8-34)

Pilin (bacterial filament) (Pilin)

(42-152)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilA Ralstonia pseudosolanacearum GMI1000

51.22

100

0.549
  comP Acinetobacter baylyi ADP1

43.671

100

0.451
  pilA2 Legionella pneumophila strain ERS1305867

47.552

93.464

0.444
  pilA2 Legionella pneumophila str. Paris

45.833

94.118

0.431
  pilA/pilA1 Eikenella corrodens VA1

39.873

100

0.412
  pilA/pilAI Pseudomonas stutzeri DSM 10701

40.523

100

0.405
  pilE Neisseria gonorrhoeae strain FA1090

36.747

100

0.399
  pilE Neisseria gonorrhoeae MS11

36.42

100

0.386

Multiple sequence alignment